Comments (6)
aquaskyline
commented on June 11, 2024
GVCF output added in Clair2.
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GuillaumeHolley
commented on June 11, 2024
Great, thanks :) Will try it asap.
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aquaskyline
commented on June 11, 2024
Clair2 will be available as soon as early 2021. Thank you for your suggestion!
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GuillaumeHolley
commented on June 11, 2024
Oh my bad, I thought that Clair was the v2 of ClairVoyante. Thank you for your work!
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YanfengJi
commented on June 11, 2024
Hello,
I am trying to process PacBioCLR data with this version of Clair and hope to get GVCF. As mentioned above, GVCF output was added in Clair2, but I did not find the corresponding parameter in the help document. May I ask what parameters should I use.
Thanks
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aquaskyline
commented on June 11, 2024
Clair doesn't support GVCF output, please use https://github.com/HKU-BAL/Clair3
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Related Issues (20)
- Specific use case HOT 1
- quality threshold advice HOT 1
- Clair and Clairvoyante having trouble with bam file from human transcript alignments HOT 1
- Automatically call SNPs for all contigs in fasta file? HOT 2
- model quantization experiments HOT 2
- Demo Error: Missing testingData HOT 2
- Any chance of a clair model trained on guppy >=3.6.0, and on guppy 4.4.2 with bonito? HOT 4
- ValueError: invalid literal for int() with base 10: 'CCA' HOT 1
- Quality cut off determination for CLR data HOT 1
- problem during training HOT 1
- sars-cov2 model HOT 1
- Models for guppy v5 basecalled Nanopore data HOT 1
- ONT R9.4.1 vs R10.3 HOT 1
- HETEROSNP is not defined in the header HOT 1
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- downsampled BAM cannot download HOT 1
- Clair force calling using callVarBam calls more number of variants than included in a vcf file. HOT 3
- error using on HPC HOT 1
- cram file support ? HOT 1
- Running issue!!
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